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MetabolomicsCustomized Consensus Spectral Library Building for Untargeted Quantitative Metabolomics Analysis with Data Independent Acquisition Mass Spectrometry and MetaboDIA Workflow
Data independent acquisition-mass spectrometry (DIA-MS) coupled with liquid chromatography is a promising approach for rapid, automatic sampling of MS/MS data in untargeted metabolomics. However, wide isolation windows in DIA-MS generate MS/MS spectra containing a mixed population of fragment ions t...
2018-03-26 | MTBLS417 | MetaboLights
ProteomicsBenchmarking CHIMERYS using Wide Window Acquisition and Classical Narrow Isolation Window Data Dependent Acquisition
A comprehensive proteome map is essential to elucidate molecular pathways and protein functions. Although great improvements in sample preparation, instrumentation and data analysis already yield-ed impressive results, current studies suffer from a limited proteomic depth and dynamic range there-for...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) Escherichia coli Saccharomyces cerevisiae (Baker's yeast) 
2024-02-13 | PXD045500 | Pride
E. coli Wide window acquisition Yeast Direct injection Micropillar array chromatography Vanquish neo Hela Orbitrap exploris 480 Single cells Trap-and-elute 
ProteomicsWide-Window Acquisition Improves Proteome Coverage and Measurement Throughput for Label-Free Single-Cell Proteomics
The sensitivity of single-cell proteomics (SCP) has increased dramatically in recent years due to advances in experimental design, sample preparation, separations and mass spectrometry instrumentation. However, further increasing the sensitivity of SCP methods and instrumentation will enable the stu...
ORGANISM(S): Homo sapiens (Human) 
2023-07-11 | PXD037527 | Pride
Label-free Proteome Single-cell proteomics Wide-window acquisition 
ProteomicsWide Window Acquisition and AI-based data analysis to reach deep proteome coverage for a wide sample range, including single cell proteomic inputs – Co-immunoprecipitation samples
A comprehensive proteome map is essential to elucidate molecular pathways and protein functions. Although great improvements in sample preparation, instrumentation and data analysis already yielded impressive results, current studies suffer from a limited proteomic depth and dynamic range therefore ...
ORGANISM(S): Mus musculus (Mouse) 
2024-02-13 | PXD037985 | Pride
Mus musculus Co-immunoprecipitation Micropillar array chromatography Smarca5 Orbitrap exploris 480 Ultimate3000 rslcnano Protein-protein interactions Trap-and-elute 
ProteomicsAssessing the relationship between mass window width and retention time scheduling on protein coverage for data-independent acquisition
Due to the technical advances of mass spectrometers especially the high scanning speed and high MS/MS resolution, the data independent acquisition mass spectrometry (DIA-MS) began to be widely used, which enables high reproducibility in both proteomic identification and quantification. The current D...
ORGANISM(S): Homo sapiens (Human) 
2019-07-01 | PXD013477 | Pride
Scheduling Rtwindia Window size Oribtrap fusion lumos Dia-ms 
ProteomicsRapid and in-depth coverage of the (phospho-)proteome with deep libraries and optimal window design for dia-PASEF
Data-independent acquisition (DIA) methods have become increasingly attractive in mass spectrometry (MS)-based proteomics, because they enable high data completeness and a wide dynamic range. Recently, we combined DIA with parallel accumulation – serial fragmentation (dia-PASEF) on a Bruker trapped ...
ORGANISM(S): Homo sapiens (Human) 
2022-08-11 | PXD034128 | Pride
Pasef Egf Tims Data-independent acquisition Phosphoproteomics Systems biology 
UnknownPrintable, wide band-gap chalcopyrite thin films for power generating window applications.
Not available
S-EPMC3957128 | biostudies-literature
ProteomicsExtensive and accurate benchmarking of DIA acquisition methods and softwares using a complex
In order to compare workflows for acquisition and treatment of proteomic data analyzed in Data Independent Acquisition (DIA) mode, a proteomic standard has been generated by spike-in the 48 human proteins of UPS1 (Sigma) in a whole cell extract of E.coli at 8 different concentrations ranging from 0....
ORGANISM(S): Escherichia Coli (ncbitaxon:562) Homo Sapiens (ncbitaxon:9606) 
2021-06-09 | MSV000087597 | MassIVE
ProteomicsRobust and easy-to-use one pot workflow for label free single cell proteomics
The analysis of ultra-low input samples or even individual cells is essential to answering a multitude of biomedical questions, but current proteomic workflows are limited in their sensitivity and reproducibility. Here we report a comprehensive workflow that includes optimized strategies for all ste...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-01-26 | MSV000091156 | MassIVE
Proteomics15 cm Aurora Gen3 column benchmarking on an Exploris 480
A comprehensive proteome map is essential to elucidate molecular pathways and protein functions. Although great improvements in sample preparation, instrumentation and data analysis already yield-ed impressive results, current studies suffer from a limited proteomic depth and dynamic range there-for...
ORGANISM(S): Homo sapiens (Human) 
2024-02-13 | PXD045457 | Pride
Vanquish neo Orbitrap exploris 480 Trap-and-elute 
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